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Full Discussion: Inserting a variable in awk script
Top Forums UNIX for Dummies Questions & Answers Inserting a variable in awk script Post 302967148 by Xterra on Friday 19th of February 2016 09:32:56 PM
Old 02-19-2016
Inserting a variable in awk script
I have file input.txt:
Code:
>TX1-1 Freq 55
cattctgatgaatatttgtcctttagttgttatttgt
>TX1-2 Freq 19
cattctgatgaatatttgtcctttagttgttatttgt
>TX1-3 Freq 17
cattctgatgaatatttgtcctttagttgttatttgt
>TX1-4 Freq 6
cattctgatgaatatttgtcctttagttgttatttgt
>TX1-5 Freq 6
cattctgatgaatatttgtcctttagttgttatttgt

And I am using the following ChangeID script to modify the ID (>XXXXX)
Code:
#!/bin/bash
if [ -f $1 ]
then
	file=$1
fi
pattern=$2
awk 'FNR==1{n=$pattern} /^>/ {print ">" n "-" ++c, $3;next}1' $file > New$file

So, when I enter ChangeID Input.txt Pat3, I am expecting to use the second field (Pat 3) to replace the beginning of the ID (>Pat3-XXX). Thus, the desire output file would look like this:
Code:
>Pat3-1 55
cattctgatgaatatttgtcctttagttgttatttgt
>Pat3-2 19
cattctgatgaatatttgtcctttagttgttatttgt
>Pat-3 17
cattctgatgaatatttgtcctttagttgttatttgt
>Pat3-4 6
cattctgatgaatatttgtcctttagttgttatttgt
>Pat3-5 6
cattctgatgaatatttgtcctttagttgttatttgt

But that did not work obviously. I have tried changing the AWK part of my script to
Code:
awk 'FNR==1{n=$2} /^>/ {print ">" n "-" ++c, $3;next}1' $file > New$file

But the script, of course, uses the second field on the row (Freq), outputting the following file:
Code:
>Freq-1 55
cattctgatgaatatttgtcctttagttgttatttgt
>Freq-2 19
cattctgatgaatatttgtcctttagttgttatttgt
>Freq-3 17
cattctgatgaatatttgtcctttagttgttatttgt
>Freq-4 6
cattctgatgaatatttgtcctttagttgttatttgt
>Freq-5 6
cattctgatgaatatttgtcctttagttgttatttgt

Any help will be greatly appreciated
 

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LEARN ABOUT MOJAVE

locale::codes::script

Locale::Codes::Script(3pm)				 Perl Programmers Reference Guide				Locale::Codes::Script(3pm)

NAME

       Locale::Codes::Script - standard codes for script identification

SYNOPSIS

	  use Locale::Codes::Script;

	  $script  = code2script('phnx');		      # 'Phoenician'
	  $code    = script2code('Phoenician'); 	      # 'Phnx'
	  $code    = script2code('Phoenician',
				 LOCALE_CODE_NUMERIC);	      # 115

	  @codes   = all_script_codes();
	  @scripts = all_script_names();

DESCRIPTION

       The "Locale::Codes::Script" module provides access to standards codes used for identifying scripts, such as those defined in ISO 15924.

       Most of the routines take an optional additional argument which specifies the code set to use. If not specified, the default ISO 15924
       four-letter codes will be used.

SUPPORTED CODE SETS

       There are several different code sets you can use for identifying scripts. A code set may be specified using either a name, or a constant
       that is automatically exported by this module.

       For example, the two are equivalent:

	  $script = code2script('phnx','alpha');
	  $script = code2script('phnx',LOCALE_SCRIPT_ALPHA);

       The codesets currently supported are:

       alpha, LOCALE_SCRIPT_ALPHA
	   This is a set of four-letter (capitalized) codes from ISO 15924 such as 'Phnx' for Phoenician.  It also includes additions to this set
	   included in the IANA language registry.

	   The Zxxx, Zyyy, and Zzzz codes are not used.

	   This is the default code set.

       num, LOCALE_SCRIPT_NUMERIC
	   This is a set of three-digit numeric codes from ISO 15924 such as 115 for Phoenician.

ROUTINES

       code2script ( CODE [,CODESET] )
       script2code ( NAME [,CODESET] )
       script_code2code ( CODE ,CODESET ,CODESET2 )
       all_script_codes ( [CODESET] )
       all_script_names ( [CODESET] )
       Locale::Codes::Script::rename_script  ( CODE ,NEW_NAME [,CODESET] )
       Locale::Codes::Script::add_script  ( CODE ,NAME [,CODESET] )
       Locale::Codes::Script::delete_script  ( CODE [,CODESET] )
       Locale::Codes::Script::add_script_alias	( NAME ,NEW_NAME )
       Locale::Codes::Script::delete_script_alias  ( NAME )
       Locale::Codes::Script::rename_script_code  ( CODE ,NEW_CODE [,CODESET] )
       Locale::Codes::Script::add_script_code_alias  ( CODE ,NEW_CODE [,CODESET] )
       Locale::Codes::Script::delete_script_code_alias	( CODE [,CODESET] )
	   These routines are all documented in the Locale::Codes::API man page.

SEE ALSO

       Locale::Codes
	   The Locale-Codes distribution.

       Locale::Codes::API
	   The list of functions supported by this module.

       http://www.unicode.org/iso15924/
	   Home page for ISO 15924.

       http://www.iana.org/assignments/language-subtag-registry
	   The IANA language subtag registry.

AUTHOR

       See Locale::Codes for full author history.

       Currently maintained by Sullivan Beck (sbeck@cpan.org).

COPYRIGHT

	  Copyright (c) 1997-2001 Canon Research Centre Europe (CRE).
	  Copyright (c) 2001-2010 Neil Bowers
	  Copyright (c) 2010-2013 Sullivan Beck

       This module is free software; you can redistribute it and/or modify it under the same terms as Perl itself.

perl v5.18.2							    2013-11-04						Locale::Codes::Script(3pm)
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